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2elj

Solution structure of the SWIRM domain of baker's yeast Transcriptional adapter 2

Method: SOLUTION NMR Dmax: 53.5 Å Quality: GOOD
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1. Protein Identity and Related Structures Protein Identity & Related Structures

Transcriptional adapter 2

Saccharomyces cerevisiae

UniProt Q02336

State in the Current Structure

Assembly Oligomeric State Construct Mutations and Modifications Ligands, Ions and Associated Components Method and Experimental Conditions Structure Quality
1 Protein monomer Monomer Protein × 1 PDB declaration: monomeric（1） Consistent with protein copy count Chain A； UniProt 354–434 Fragment：SWIRM No other associated polymer SOLUTION NMR NMR measurement conditions：pH 7；296 K；Ionic strength (raw mmCIF value) 120mM；Pressure ambient NMR sample composition：0.3mM sample U-15N,13C; 20mM d-Tris-HCl; 100mM NaCl; 1mM d-DTT; 0.02% NaN3; 90% H2O, 10% D2O | 90% H2O/10% D2O Resolution not provided

Other States of the Same Protein in the Database

Each row is a biological assembly of the same UniProt protein in another PDB entry. The “Difference from current entry” column identifies evidence-level differences; no tag means the currently parsed fields agree.

Other PDB Difference from Current Entry 2ELJ Assembly / Oligomeric State Construct Mutations and Modifications Ligands, Ions and Non-polymers Method and Experimental Conditions Structure Quality
6CW3 Crystal structure of a yeast SAGA transcriptional coactivator Ada2/Gcn5 HAT subcomplex, crystal form 2 Deposited 2018-03-29 Different construct Different oligomeric state Different ligand/ion Different experimental method Different experimental conditions Different structure-quality metrics Assembly 1 Protein heterocomplex Heteromer；Protein × 4 PDB declaration: tetrameric
Chain G 1–120（120 aa）
Not recorded ZN ZINC ION × 2 X-RAY DIFFRACTION
X-ray crystallization conditions MICROBATCH；pH 7；294 K；100 mM succinic acid pH 7.0, 15% w/v PEG3350
Resolution 1.98 Å R-free 0.227
6CW3 Crystal structure of a yeast SAGA transcriptional coactivator Ada2/Gcn5 HAT subcomplex, crystal form 2 Deposited 2018-03-29 Different construct Different oligomeric state Different ligand/ion Different experimental method Different experimental conditions Different structure-quality metrics Assembly 2 Protein heterocomplex Heteromer；Protein × 4 PDB declaration: tetrameric
Chain E 1–120（120 aa）
Not recorded ZN ZINC ION × 2 X-RAY DIFFRACTION
X-ray crystallization conditions MICROBATCH；pH 7；294 K；100 mM succinic acid pH 7.0, 15% w/v PEG3350
Resolution 1.98 Å R-free 0.227

1 other PDB entries and 2 assemblies. Open the comparison page and filter oligomeric states

View Construct and Data Evidence
UniProt name ADA2_YEAST
Isoform —
PDB entities 1
Chains and sequence ranges Author chain A； PDBConstruct 8–88； UniProt 354–434

The page prioritizes protein identity, the current assembly, associated components, oligomeric state and cross-PDB links. Chain mapping and sequence ranges are retained as data evidence. Internal IDs, import timestamps and assembly operation expressions are maintenance fields and are not shown here.

SAXS scattering curve SAXS Profile

SAXS profile for 2elj

P(r) Distance Distribution P(r) Distribution

P(r) distribution for 2elj
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2. Structure Basics 2. Structure Basics

Entry ID entry_id2elj
Deposition date deposition_date2007-03-27
Structure title titleSolution structure of the SWIRM domain of baker's yeast Transcriptional adapter 2
Keywords keywords;YDR448W, Structural Genomics, NPPSFA, National Project on Protein Structural and Functional Analyses, RIKEN Structural Genomics/Proteomics Initiative, RSGI, TRANSCRIPTION ;; TRANSCRIPTION
Experimental Method methodSOLUTION NMR
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3. SAXS Parameters (CRYSOL theoretical calculation) 3. SAXS Parameters (CRYSOL)

Radius of gyration Rg (Guinier) rg_guinier14.21 Å
Radius of gyration Rg (electron density) rg_electron13.41 Å
Forward intensity I(0) i0540600000.00
Molecular weight molecular_weight198610.0 kDa
Excluded volume excluded_volume249490 ų
Envelope volume envelope_volume26291 ų
Hydration-shell volume shell_volume14019 ų
Envelope diameter envelope_diameter54.0 Å
Shell Rg shell_rg21.92 Å
Envelope Rg envelope_rg17.07 Å
Shape Rg shape_rg13.40 Å
Total Rg total_rg13.60 Å
Total atoms total_atoms27960
Residues n_residues1760
Spherical-harmonic order n_harmonics20
q range q_range— – 0.5000 Å−1
Data points n_points101
Shell type shell_typedirectional
Solvent electron density solvent_density0.3340 e/ų
Shell contrast contrast_shell0.0300 e/ų
CRYSOL version crysol_version4.1.3
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4. P(r) Distance Distribution (GNOM inversion) 4. P(r) Analysis (GNOM)

Maximum dimension Dmax dmax53.5 Å
Rg (real space) rg_real14.20 Å
Rg uncertainty (real space) rg_real_error0.46 Å
I(0) (real space) i0_real5.4060e+08
I(0) uncertainty (real space) i0_real_error6.8250e+06
Rg (reciprocal space) rg_reciprocal14.20 Å
I(0) (reciprocal space) i0_reciprocal540600000.0000
Solution quality estimate total_estimate0.8049
Solution quality rating solution_quality GOOD a GOOD solution
P(r) peaks n_peaks2
Primary peak position r_peak_primary15.6 Å
Skewness Skewness skewness0.274
Kurtosis Kurtosis kurtosis-0.210
Angular range angular_range— – 0.5000 Å−1
Current regularization parameter α current_alpha0.0000
Highest regularization parameter α highest_alpha137400.0000
Real-space data points n_real_points80
GNOM version gnom_version4.1.3
Quality Criteria quality_criteria AN1: 0.000; Oscil: 0.533; Stabil: 1.000; Sysdev: 1.000; Positv: 1.000; Valcen: 0.864; Smooth: 0.996
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5. Crystallography and Experiment 5. Crystallography & Experiment

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6. Entities and Polymers Entities & Polymers (1)

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7. Fold Classification (SCOP + CATH) 1 domains

CATH v4.4 (1 domains)

Domain ID domain_id2eljA01
Class class1 — Mainly Alpha
Architecture architecture10 — Orthogonal Bundle
Topology topology10 — Arc Repressor Mutant, subunit A
Homologous superfamily homologous superfamily10 — Winged helix-like DNA-binding domain superfamily/Winged helix DNA-binding domain
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8. Citations (1)

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9. Files and Curves (10)